ebio·ome: the DNA space explorer.
Talk at SynBioBeta 2017 http://sf2017.synbiobeta.com/speakers/laura-adam/
PACHA.YEAST: Morphogenetic engineering of yeast Microcolonies
Incas regarded space and time as a single concept, referred to as pacha ( Quechua: pacha, Aymara: pacha). A poster of my work on PACHA.YEAST: Highlights: Lab automation with Apprent’yeast: learned patterns to automatically design plasmids from lab data (inferred a probabilistic context-free grammar (PCFG)) Adam, L. & Klavins, E. (2015). archiYEAST: a command-line synthetic yeast …
LYSD: Language for Yeast Spatiotemporal Development
LYSD is a language a created to specify a phenotype. It can be compiled down into a genetic designs, which ultimately can be automatically build into a lab (check out Aquarium from the Klavins lab; I used it with a python API). We could formally verify a programmed phenotype: microscopy images can be analysed and …
Judging at iGEM
2010-2016: Judge at the Jamboree 2014: Committee member Policy and Practices New track 2012: Judge at aGEM, Edmonton, Alberta, Canada (invited) 2010-2011: Advisor Virginia Tech Team and Virginia Tech-ENSIMAG Biosecurity Team
Gro for snowflake yeast
Gro is a software written in C++ using QT. Gro is a programming language and a 2D simulation environment for cells. The physics and front end has been implemented for e.coli. Specification and simulation of synthetic multicelled behaviors. Jang SS(1), Oishi KT, Egbert RG, Klavins E. Author information: (1)Department of Electrical Engineering, University of Washington, …
[OVERVIEW] My BioCAD tools
Design: GenoCAD – Rule-based genetic design tools user-friendly and Domain Specific Language M. Galdzicki, K. P. Clancy, E. Oberortner, M. Pocock, J. Y. Quinn, C. a Rodriguez, N. Roehner, M. L. Wilson, L. Adam, J. C. Anderson, B. a Bartley, J. Beal, D. Chandran, J. Chen, D. Densmore, D. Endy, R. Grünberg, J. Hallinan, N. …
The Synthetic Biology Open Language (SBOL) provides a community standard for communicating designs in synthetic biology
Authors: Michal Galdzicki, Kevin P Clancy, Ernst Oberortner, Matthew Pocock, Jacqueline Y Quinn, Cesar A Rodriguez, Nicholas Roehner, Mandy L Wilson, Laura Adam, J Christopher Anderson, Bryan A Bartley, Jacob Beal, Deepak Chandran, Joanna Chen, Douglas Densmore, Drew Endy, Raik Grünberg, Jennifer Hallinan, Nathan J Hillson, Jeffrey D Johnson, Allan Kuchinsky, Matthew Lux, Goksel Misirli, …
Development of a domain-specific genetic language to design Chlamydomonas reinhardtii expression vectors
Authors Mandy L Wilson, Sakiko Okumoto, Laura Adam, Jean Peccoud Publication date 2013/11/8 Journal Bioinformatics Volume30 Issue2 Pages 251-257 Abstract Motivation: Expression vectors used in different biotechnology applications are designed with domain-specific rules. For instance, promoters, origins of replication or homologous recombination sites are host-specific. Similarly, chromosomal integration or viral delivery of an expression cassette imposes specific …
[Slides DEFENSE] Mapping Genotype to Phenotype using Attribute Grammar
MAPPING GENOTYPE TO PHENOTYPE USING ATTRIBUTE GRAMMAR Doctoral Dissertation Defense Thursday, July 25th, 2013 – 1:00PM Virginia Bioinformatics Institute – Room 325LAURA ADAM Genetics, Bioinformatics and Computational Biology Program ADVISORY COMMITTEE: Jean Peccoud (Chair) David Bevan, Harold Garner, François Képès, Naren Ramakrishnan, John Tyson Abstract Over the past 10 years, several synthetic biology research groups …
News coverage GenoTHREAT
Biosecurity for the Age of Redesigned Life.November 8, 2013 by JOHN DANKOSKY. NPR Science Friday (http://www.sciencefriday.com/segments/biosecurity-for-the-age-of-redesigned-life/) iGEM Team Developing Biosecurity Software for Synthetic Genomics.Jul 23, 2010 by Uduak Grace Thomas. (https://www.genomeweb.com/informatics/igem-team-developing-biosecurity-software-synthetic-genomics) Bioinformatics used to detect rogue use of synthetic biology. July 19-20, 2010 by Barry Whyte, Virginia Tech (PR). Biotechniques, Science Blog, e! Science News, R&D Mag, Eurekalert, ScienceDaily, …